TCGA Roadmap

TCGA Roadmap provides an index of the files listed in the TCGA's open access HTTP site as Linked Data.

Schema

The Schema used to represent resources in the TCGA is available as a Turtle File.

As used below, the prefix tcga represents http://purl.org/tcga/core, while tcgaRoot represents https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/.

Class and Instance diagrams of the schema are also available.

Types

See the TCGA Data Primer and Code Tables for details on these types.

• tcga:DiseaseStudy
• tcga:CenterType
• tcga:CenterDomain
• tcga:Platform
• tcga:DataType
• tcga:Archive
• tcga:File

Data Types correspond to the directory structure:

tcgaRoot:DiseaseStudy/CenterType/CenterDomain/Platform/DataType/Archive/File

e.g.

tcgaRoot:gbm/cgcc/mdanderson.org/mda_rppa_core/protein_exp/mdanderson.org_GBM.MDA_RPPA_Core.Level_2.1.0.0/mdanderson.org_GBM.MDA_RPPA_Core.SuperCurve.Level_2.00da2077-778c-418a-9c92-01febd970ed8.txt

Properties

Entities of all types may have the following properties.

• rdfs:label
• rdf:type
• tcga:url
• tcga:lastModified
• tcga:firstSeen
• tcga:lastSeen

Properties Exclusive to tcga:File Resources

Only entities of type tcga:File have the following properties.

• tcga:diseaseStudy
• tcga:centerType
• tcga:centerDomain
• tcga:platform
• tcga:dataType
• tcga:archive